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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $species_info = array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ) $local_species = 'can' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $species_info = array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ) $local_species = 'can' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $species_info = array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ) $local_species = 'chi' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $species_info = array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ) $local_species = 'chi' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $species_info = array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ) $local_species = 'cde' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $species_info = array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ) $local_species = 'cde' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $species_info = array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ) $local_species = 'cre' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $species_info = array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ) $local_species = 'cre' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $species_info = array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ) $local_species = 'car' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $species_info = array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ) $local_species = 'car' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $species_info = array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ) $local_species = 'hma' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $species_info = array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ) $local_species = 'hma' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $species_info = array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ) $local_species = 'lsa' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $species_info = array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ) $local_species = 'lsa' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $species_info = array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ) $local_species = 'smo' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $species_info = array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ) $local_species = 'smo' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $species_info = array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ) $local_species = 'sun' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $species_info = array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ) $local_species = 'sun' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $species_info = array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ) $local_species = 'sgi' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $species_info = array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ) $local_species = 'sgi' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ), 'gf_id' => 'HOM05D001003', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001003' ), 'data_identifier' => 'HOM05D001003', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001003', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '604', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22100' => 'bna', 'A01p22410' => 'bna', 'A01p32980' => 'bna', 'A02p15900' => 'bna', 'A02p24500' => 'bna', 'A04p25890' => 'bna', 'A05p05220' => 'bna', 'A07p31630' => 'bna', 'A07p35720' => 'bna', 'A08p14930' => 'bna', 'A09p43710' => 'bna', 'A10p07010' => 'bna', 'Aa31LG4G11450' => 'aar', 'Aa31LG5G1430' => 'aar', 'Aa31LG8G8740' => 'aar', 'Aa31LG9G2300' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.69' => 'aag', 'Actinidia06414' => 'ach', 'Actinidia12306' => 'ach', 'Actinidia12512' => 'ach', 'Actinidia15514' => 'ach', 'Actinidia17066' => 'ach', 'Actinidia21337' => 'ach', 'Actinidia31595' => 'ach', 'Actinidia33231' => 'ach', 'Actinidia37911' => 'ach', 'Ah.01g007600' => 'amhyb', 'Ah.02g129330' => 'amhyb', 'Ah.03g134630' => 'amhyb', 'Ah.08g218780' => 'amhyb', 'Ah.11g041870' => 'amhyb', 'AL2G28530' => 'aly', 'AL3G36390' => 'aly', 'AL4G29310' => 'aly', 'AL6G51610' => 'aly', 'AL7G40640' => 'aly', 'Aqoxy1G01414' => 'aox', 'Aqoxy3G03506' => 'aox', 'Aqoxy5G02823' => 'aox', 'Aqoxy6G01568' => 'aox', 'Aqoxy72s005' => 'aox', 'Aqoxy72s006' => 'aox', 'Aqoxy72s007' => 'aox', 'arahy.Tifrunner.gnm1.ann1.09736N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2M98J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5AJ9B8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BFPB6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDL07N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FXN302' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HE6EBR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HU2SAR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXIP' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J381VT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LC0XC4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2JUVA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TY171H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TZF7UT' => 'arhy', 'AT1G69420' => 'ath', 'AT2G33640' => 'ath', 'AT3G22180' => 'ath', 'AT4G01730' => 'ath', 'AT4G15080' => 'ath', 'ATR0697G212' => 'atr', 'ATR0730G187' => 'atr', 'ATR0796G154' => 'atr', 'ATR0807G130' => 'atr', 'Atru.BG.64.p' => 'acertr', 'Atru.chr11.1708' => 'acertr', 'Atru.chr13.86' => 'acertr', 'Atru.chr13.87' => 'acertr', 'Atru.chr13.88' => 'acertr', 'Atru.chr5.857' => 'acertr', 'Atru.chr8.994' => 'acertr', 'AUR62003533' => 'cqu', 'AUR62005856' => 'cqu', 'AUR62011766' => 'cqu', 'AUR62017847' => 'cqu', 'AUR62024612' => 'cqu', 'AUR62032848' => 'cqu', 'AUR62035154' => 'cqu', 'AUR62042582' => 'cqu', 'AUR62042583' => 'cqu', 'AUR62042590' => 'cqu', 'BcaB01g00053' => 'bca', 'BcaB03g15471' => 'bca', 'BcaB03g15893' => 'bca', 'BcaB03g15903' => 'bca', 'BcaB03g16396' => 'bca', 'BcaB04g18168' => 'bca', 'BcaB04g18277' => 'bca', 'BcaB04g20539' => 'bca', 'BcaB05g23602' => 'bca', 'BcaB05g24387' => 'bca', 'BcaB05g24450' => 'bca', 'BcaB06g26319' => 'bca', 'BcaB06g27994' => 'bca', 'BcaB06g28708' => 'bca', 'BcaC02g07808' => 'bca', 'BcaC03g15082' => 'bca', 'BcaC03g16102' => 'bca', 'BcaC07g39529' => 'bca', 'BcaC07g39595' => 'bca', 'BcaC08g45893' => 'bca', 'BcaC09g49155' => 'bca', 'BcaC09g50187' => 'bca', 'BcaC09g50193' => 'bca', 'BcaC09g50194' => 'bca', 'BcaC09g50196' => 'bca', 'BcaNung00305' => 'bca', 'BolC1t02729H' => 'bol', 'BolC1t04164H' => 'bol', 'BolC2t08708H' => 'bol', 'BolC2t09889H' => 'bol', 'BolC3t13129H' => 'bol', 'BolC3t18587H' => 'bol', 'BolC4t22518H' => 'bol', 'BolC4t23801H' => 'bol', 'BolC4t27788H' => 'bol', 'BolC5t34720H' => 'bol', 'BolC6t38808H' => 'bol', 'BolC6t39380H' => 'bol', 'BolC6t39551H' => 'bol', 'BolC8t50367H' => 'bol', 'BolC8t50368H' => 'bol', 'BraA01t02118Z' => 'bra', 'BraA01t02159Z' => 'bra', 'BraA01t03417Z' => 'bra', 'BraA02t06643Z' => 'bra', 'BraA02t07440Z' => 'bra', 'BraA03t14578Z' => 'bra', 'BraA04t18091Z' => 'bra', 'BraA07t30790Z' => 'bra', 'BraA07t31159Z' => 'bra', 'C01p27960' => 'bna', 'C01p42050' => 'bna', 'C02p26350' => 'bna', 'C02p38720' => 'bna', 'C03p06220' => 'bna', 'C03p62150' => 'bna', 'C03p63340' => 'bna', 'C04p23070' => 'bna', 'C04p63160' => 'bna', 'C06p36980' => 'bna', 'C06p40510' => 'bna', 'CAN.G1638.2' => 'can', 'CAN.G179.32' => 'can', 'CAN.G2106.2' => 'can', 'CAN.G839.5' => 'can', 'CAN.G839.6' => 'can', 'CANSAT25G3507' => 'cansat', 'CANSAT56G4325' => 'cansat', 'CANSAT64G0691' => 'cansat', 'CANSAT64G2791' => 'cansat', 'CARHR062300' => 'chi', 'CARHR098070' => 'chi', 'CARHR127650' => 'chi', 'CARHR221780' => 'chi', 'CARHR249950' => 'chi', 'Carub.0002s1602' => 'cru', 'Carub.0003s2235' => 'cru', 'Carub.0004s1527' => 'cru', 'Carub.0006s3548' => 'cru', 'Carub.0007s2692' => 'cru', 'Ca_10239_v3' => 'car', 'Ca_11244_v3' => 'car', 'Ca_15394_v3' => 'car', 'Ca_25945_v3' => 'car', 'Ca_26773_v3' => 'car', 'Cc01_g21770' => 'ccan', 'Cc08_g06920' => 'ccan', 'Cc08_g06930' => 'ccan', 'Cc10_g00380' => 'ccan', 'Cc11_g12510' => 'ccan', 'CDE01G0110' => 'cde', 'CDE01G0170' => 'cde', 'CDE04G2312' => 'cde', 'CDE04G2886' => 'cde', 'CDE07G0620' => 'cde', 'CDE07G1373' => 'cde', 'CDE12G0884' => 'cde', 'Cfa004915' => 'cfa', 'Cfa008922' => 'cfa', 'Cfa014120' => 'cfa', 'Cfa023520' => 'cfa', 'Ciclev10000614m.g' => 'ccl', 'Ciclev10011159m.g' => 'ccl', 'Ciclev10019818m.g' => 'ccl', 'Ciclev10030950m.g' => 'ccl', 'CiPaw.03G112800' => 'cil', 'CiPaw.04G073000' => 'cil', 'CiPaw.05G129200' => 'cil', 'CiPaw.07G125800' => 'cil', 'CiPaw.08G076100' => 'cil', 'ClCG05G023970' => 'cla', 'ClCG07G010940' => 'cla', 'ClCG11G013150' => 'cla', 'COL.COLO4_05302' => 'col', 'COL.COLO4_23126' => 'col', 'COL.COLO4_27957' => 'col', 'COL.COLO4_33760' => 'col', 'Cpa.g.sc1.74' => 'cpa', 'Cpa.g.sc26.155' => 'cpa', 'Cpa.g.sc26.156' => 'cpa', 'Cpa.g.sc57.19' => 'cpa', 'Cpa.g.sc8.289' => 'cpa', 'Cre10.g429600' => 'cre', 'CsaV3_4G007330' => 'csa', 'CsaV3_5G029680' => 'csa', 'CsaV3_5G033080' => 'csa', 'CSS0002914' => 'camsi', 'CSS0010381' => 'camsi', 'CSS0013723' => 'camsi', 'CSS0016131' => 'camsi', 'CSS0022092' => 'camsi', 'CSS0040469' => 'camsi', 'CSS0044210' => 'camsi', 'DCAR_005715' => 'dca', 'DCAR_007176' => 'dca', 'DCAR_013338' => 'dca', 'DCAR_013935' => 'dca', 'DCAR_022996' => 'dca', 'DCAR_030990' => 'dca', 'Dinv09879' => 'din', 'Dinv16693' => 'din', 'Dinv31975' => 'din', 'Dinv33174' => 'din', 'Dinv34102' => 'din', 'Duzib116G0660' => 'dzi', 'Duzib133G0603' => 'dzi', 'Duzib133G0856' => 'dzi', 'Duzib138G0291' => 'dzi', 'Duzib138G1827' => 'dzi', 'Duzib211G0151' => 'dzi', 'Duzib248G0508' => 'dzi', 'Duzib251G0588' => 'dzi', 'Duzib268G0875' => 'dzi', 'ECA232G4159' => 'eca', 'ECA233G1502' => 'eca', 'ECA246G4697' => 'eca', 'ECA247G3135' => 'eca', 'EL10Ac1g01898' => 'bvu', 'EL10Ac6g13274' => 'bvu', 'EL10Ac6g15347' => 'bvu', 'EL10As5g23619' => 'bvu', 'Eucgr.A00906' => 'egr', 'Eucgr.A01002' => 'egr', 'Eucgr.C01308' => 'egr', 'Eucgr.F03582' => 'egr', 'FAN02G0513' => 'fan', 'FAN04G0380' => 'fan', 'FAN04G2574' => 'fan', 'FAN05G3819' => 'fan', 'FAN08G2256' => 'fan', 'FAN09G3732' => 'fan', 'FAN12G4096' => 'fan', 'FAN13G3154' => 'fan', 'FAN14G1170' => 'fan', 'FAN17G2835' => 'fan', 'FAN18G2920' => 'fan', 'FAN19G3028' => 'fan', 'FAN22G1214' => 'fan', 'FAN23G0120' => 'fan', 'FAN26G2667' => 'fan', 'FAN28G0583' => 'fan', 'FvH4_1g26210' => 'fve', 'FvH4_4g30660' => 'fve', 'FvH4_5g25830' => 'fve', 'FvH4_6g39520' => 'fve', 'Glyma.01G053300' => 'gma', 'Glyma.02G111800' => 'gma', 'Glyma.04G015600' => 'gma', 'Glyma.06G015600' => 'gma', 'Glyma.07G227700' => 'gma', 'Glyma.10G138200' => 'gma', 'Glyma.11G096100' => 'gma', 'Glyma.12G022200' => 'gma', 'Glyma.20G030100' => 'gma', 'Gohir.A04G146300' => 'ghi', 'Gohir.A05G177900' => 'ghi', 'Gohir.A07G083101' => 'ghi', 'Gohir.A12G119601' => 'ghi', 'Gohir.A12G119700' => 'ghi', 'Gohir.A13G078500' => 'ghi', 'Gohir.D04G190700' => 'ghi', 'Gohir.D05G181300' => 'ghi', 'Gohir.D07G087301' => 'ghi', 'Gohir.D12G123200' => 'ghi', 'Gohir.D12G123300' => 'ghi', 'Gohir.D13G078700' => 'ghi', 'Gorai.001G093300' => 'gra', 'Gorai.008G134400' => 'gra', 'Gorai.009G186300' => 'gra', 'Gorai.012G186100' => 'gra', 'Gorai.013G090000' => 'gra', 'GSVIVG01012479001' => 'vvi', 'GSVIVG01013407001' => 'vvi', 'GSVIVG01015825001' => 'vvi', 'GSVIVG01028245001' => 'vvi', 'HanXRQChr03g0072611' => 'han', 'HanXRQChr05g0144781' => 'han', 'HanXRQChr08g0211101' => 'han', 'HanXRQChr09g0246031' => 'han', 'HanXRQChr10g0286471' => 'han', 'HanXRQChr12g0354901' => 'han', 'HanXRQChr12g0361761' => 'han', 'HanXRQChr12g0369741' => 'han', 'HanXRQChr14g0427891' => 'han', 'HanXRQChr15g0464501' => 'han', 'HanXRQChr15g0491041' => 'han', 'HanXRQChr15g0492521' => 'han', 'HanXRQChr17g0545391' => 'han', 'Haze_05151' => 'cav', 'Haze_11951' => 'cav', 'Haze_13642' => 'cav', 'Haze_22841' => 'cav', 'Hma1.2p1_0354F.1_g133760' => 'hma', 'Hma1.2p1_0357F.1_g134320' => 'hma', 'Hma1.2p1_0408F.1_g146280' => 'hma', 'Hma1.2p1_0699F.1_g205620' => 'hma', 'Hma1.2p1_1310F.1_g274790' => 'hma', 'HPP92_010146' => 'vpl', 'HPP92_013205' => 'vpl', 'HPP92_020456' => 'vpl', 'Hund04374' => 'sun', 'Hund05087' => 'sun', 'Hund11622' => 'sun', 'Hund25203' => 'sun', 'Lalb_Chr03g0024561' => 'lal', 'Lalb_Chr09g0329131' => 'lal', 'Lalb_Chr11g0061441' => 'lal', 'Lalb_Chr17g0340901' => 'lal', 'Lalb_Chr19g0139681' => 'lal', 'Lalb_Chr21g0309841' => 'lal', 'Lalb_Chr23g0265621' => 'lal', 'Lj1g0022108' => 'lja', 'Lj2A1216T57' => 'lonja', 'Lj2A421T48' => 'lonja', 'Lj2C421G4' => 'lonja', 'Lj2g0023172' => 'lja', 'Lj2g0027573' => 'lja', 'Lj2P421T46' => 'lonja', 'Lj3g0004285' => 'lja', 'Lj4A810T51' => 'lonja', 'Lj4C6T5' => 'lonja', 'Lj5g0012064' => 'lja', 'Lj6A783T47' => 'lonja', 'Lj7A672G66' => 'lonja', 'Lsat_1_v5_gn_2_421' => 'lsa', 'Lsat_1_v5_gn_3_51780' => 'lsa', 'Lsat_1_v5_gn_8_49341' => 'lsa', 'Lsat_1_v5_gn_9_41841' => 'lsa', 'Lsat_1_v5_gn_9_7000' => 'lsa', 'Manes.01G031800' => 'mes', 'Manes.01G235300' => 'mes', 'Manes.05G106700' => 'mes', 'Manes.05G125500' => 'mes', 'Manes.09G001500' => 'mes', 'Mapoly0107s0005' => 'mpo', 'Mapoly0132s0002' => 'mpo', 'MBI06_g06497_MAGBIO' => 'mbi', 'MBI08_g29082_MAGBIO' => 'mbi', 'MBI16_g14989_MAGBIO' => 'mbi', 'MBI18_g10372_MAGBIO' => 'mbi', 'MBI19_g43435_MAGBIO' => 'mbi', 'MD09G1139400' => 'mdo', 'MD09G1290600' => 'mdo', 'MD13G1067800' => 'mdo', 'MD17G1128900' => 'mdo', 'MD17G1285300' => 'mdo', 'Medtr1g085980' => 'mtr', 'Medtr3g115950' => 'mtr', 'Medtr4g076120' => 'mtr', 'Medtr4g082560' => 'mtr', 'Medtr5g007470' => 'mtr', 'Medtr5g042870' => 'mtr', 'MELO3C011811.2' => 'cme', 'MELO3C012129.2' => 'cme', 'MELO3C016235.2' => 'cme', 'Migut.C00373' => 'egut', 'Migut.D00011' => 'egut', 'Migut.H01264' => 'egut', 'Migut.L01236' => 'egut', 'MSTRG.12271' => 'ama', 'MSTRG.14114' => 'ama', 'MSTRG.18060' => 'ama', 'MSTRG.733' => 'ama', 'MSTRG.997' => 'ama', 'Nitab4.5_0000019g0170' => 'nta', 'Nitab4.5_0000222g0390' => 'nta', 'Nitab4.5_0000391g0090' => 'nta', 'Nitab4.5_0001756g0190' => 'nta', 'Nitab4.5_0003092g0040' => 'nta', 'Nitab4.5_0005448g0010' => 'nta', 'Nitab4.5_0016524g0010' => 'nta', 'Nn3g17345' => 'nnu', 'Nn4g23292' => 'nnu', 'Nn4g25340' => 'nnu', 'Nn5g31020' => 'nnu', 'Nn7g38232' => 'nnu', 'Oeu016236.3' => 'oeu', 'Oeu016759.2' => 'oeu', 'Oeu021090.2' => 'oeu', 'Oeu035854.1' => 'oeu', 'Oeu037945.1' => 'oeu', 'Oeu037946.1' => 'oeu', 'Oeu052586.1' => 'oeu', 'Oeu052588.2' => 'oeu', 'Oeu054521.1' => 'oeu', 'Oeu057653.1' => 'oeu', 'Oeu062559.1' => 'oeu', 'Os03g0209500' => 'osa', 'Os04g0585100' => 'osa', 'Os07g0596000' => 'osa', 'Os08g0556400' => 'osa', 'Os09g0563250' => 'osa', 'Os10g0337500' => 'osa', 'Os12g0263100' => 'osa', 'Peaxi162Scf00047g02453' => 'pax', 'Peaxi162Scf00095g00524' => 'pax', 'Peaxi162Scf00095g00525' => 'pax', 'Peaxi162Scf00222g00123' => 'pax', 'Peaxi162Scf00309g00810' => 'pax', 'Peaxi162Scf00322g00027' => 'pax', 'Peaxi162Scf00680g00416' => 'pax', 'PGR003G0001' => 'pgr', 'PGR016G0006' => 'pgr', 'PGR031G2960' => 'pgr', 'PGR042G2921' => 'pgr', 'PGR044G2414' => 'pgr', 'PGR102G0068' => 'pgr', 'PGSC0003DMG400001118' => 'stu', 'PGSC0003DMG400009915' => 'stu', 'PGSC0003DMG400028336' => 'stu', 'Phvul.002G091400' => 'pvu', 'Phvul.002G103600' => 'pvu', 'Phvul.007G209100' => 'pvu', 'Phvul.009G006900' => 'pvu', 'Phvul.011G024200' => 'pvu', 'Potri.002G006900' => 'ptr', 'Potri.002G186800' => 'ptr', 'Potri.005G254366' => 'ptr', 'Potri.005G254432' => 'ptr', 'Potri.006G020800' => 'ptr', 'Potri.008G091700' => 'ptr', 'Potri.010G163200' => 'ptr', 'Potri.014G112000' => 'ptr', 'Potri.016G018400' => 'ptr', 'Pp3c12_23540' => 'ppa', 'Pp3c17_5570' => 'ppa', 'Pp3c3_36640' => 'ppa', 'Pp3c3_36840' => 'ppa', 'Pp3c5_9220' => 'ppa', 'Pp3c6_21250' => 'ppa', 'Pp3c8_3500' => 'ppa', 'Prupe.1G280400' => 'ppe', 'Prupe.3G002400' => 'ppe', 'Prupe.3G186400' => 'ppe', 'Prupe.5G007200' => 'ppe', 'Psat0s12312g0040' => 'psa', 'Psat2g127720' => 'psa', 'Psat2g157720' => 'psa', 'Psat2g157800' => 'psa', 'Psat5g010240' => 'psa', 'Psat6g158800' => 'psa', 'Psat7g154200' => 'psa', 'Psat7g179280' => 'psa', 'Psat7g179320' => 'psa', 'PSO017G6613' => 'pso', 'PSO063G7182' => 'pso', 'PSO063G7276' => 'pso', 'PSO170G3511' => 'pso', 'PSO357G0515' => 'pso', 'PSO478G5070' => 'pso', 'PSO541G3668' => 'pso', 'PSO675G1762' => 'pso', 'PSO675G5204' => 'pso', 'QL02p015288' => 'qlo', 'QL03p069879' => 'qlo', 'QL03p069884' => 'qlo', 'QL04p062057' => 'qlo', 'QL12p034974' => 'qlo', 'RcHm_v2.0_Chr2g0153581' => 'rch', 'RcHm_v2.0_Chr3g0485751' => 'rch', 'RcHm_v2.0_Chr4g0439071' => 'rch', 'RcHm_v2.0_Chr7g0216301' => 'rch', 'Rhsim01G0000600' => 'rsi', 'Rhsim06G0004400' => 'rsi', 'Rhsim12G0014600' => 'rsi', 'Rhsim12G0077800' => 'rsi', 'Rhsim12G0133200' => 'rsi', 'Sabra02G0005200' => 'sbr', 'Sabra02G0129500' => 'sbr', 'Sabra05G0197200' => 'sbr', 'Sabra06G0014300' => 'sbr', 'Sabra08G0068700' => 'sbr', 'Sabra14G0082300' => 'sbr', 'Sabra16G0020400' => 'sbr', 'SalBow1G1397' => 'sbo', 'SalBow2G2671' => 'sbo', 'SalBow2G3343' => 'sbo', 'SalBow7G0783' => 'sbo', 'Sc03g0006120' => 'sci', 'Sc04g0007840' => 'sci', 'Sc05g0000030' => 'sci', 'Sc26g0004690' => 'sci', 'Sed0000323' => 'sed', 'Sed0009563' => 'sed', 'Sed0010578' => 'sed', 'Sed0010997' => 'sed', 'Sed0024561' => 'sed', 'SEGI_06954' => 'sgi', 'SEGI_18982' => 'sgi', 'SEGI_25145' => 'sgi', 'SEGI_26781' => 'sgi', 'SEGI_30426' => 'sgi', 'SEGI_39865' => 'sgi', 'SGA_v2.0_scaffold133G34592' => 'sas', 'SGA_v2.0_scaffold16G07738' => 'sas', 'SGA_v2.0_scaffold36G14416' => 'sas', 'SGA_v2.0_scaffold417G51249' => 'sas', 'SGA_v2.0_scaffold49G18383' => 'sas', 'SHI07961' => 'shi', 'SMO117G0366' => 'smo', 'SMO364G0241' => 'smo', 'SMO364G0795' => 'smo', 'Solyc01g079100.3' => 'sly', 'Solyc04g082650.3' => 'sly', 'Solyc05g012790.4' => 'sly', 'Solyc05g016030.3' => 'sly', 'Sopen01g030610' => 'spe', 'Sopen04g036280' => 'spe', 'Sopen05g007610' => 'spe', 'Sopen05g012250' => 'spe', 'Sp4g16000' => 'spa', 'Sp5g24470' => 'spa', 'Sp6g01620' => 'spa', 'Sp7g13310' => 'spa', 'TAR369G0220' => 'tar', 'TAR369G0619' => 'tar', 'TAR371G0663' => 'tar', 'TAR376G0592' => 'tar', 'TAR624G0417' => 'tar', 'TAR626G0868' => 'tar', 'TAR626G1795' => 'tar', 'TAR628G0861' => 'tar', 'TAR633G1580' => 'tar', 'THA.LOC104801324' => 'tha', 'THA.LOC104808514' => 'tha', 'THA.LOC104808647' => 'tha', 'THA.LOC104813179' => 'tha', 'THA.LOC104822031' => 'tha', 'THA.LOC104822032' => 'tha', 'THA.LOC104822904' => 'tha', 'Thecc.01G172900' => 'tca', 'Thecc.01G325600' => 'tca', 'Thecc.02G338800' => 'tca', 'Thecc.08G063500' => 'tca', 'Thhalv10016452m.g' => 'esa', 'Thhalv10018316m.g' => 'esa', 'Thhalv10020167m.g' => 'esa', 'Thhalv10022452m.g' => 'esa', 'Thhalv10024657m.g' => 'esa', 'Thhalv10026877m.g' => 'esa', 'Thhalv10028590m.g' => 'esa', 'TPR.G19939' => 'tpr', 'TPR.G3082' => 'tpr', 'TPR.G31977' => 'tpr', 'TPR.G34088' => 'tpr', 'TPR.G38087' => 'tpr', 'TWI12G0434' => 'twi', 'TWI23G0884' => 'twi', 'TWI32G1358' => 'twi', 'TWI59G0358' => 'twi', 'TWI60G0163' => 'twi', 'TWI75G0974' => 'twi', 'TWI79G0452' => 'twi', 'unitig_22.g6501' => 'ugi', 'unitig_26.g9879' => 'ugi', 'unitig_52.g17324' => 'ugi', 'unitig_578.g16644' => 'ugi', 'unitig_62.g23248' => 'ugi', 'unitig_749.g13212' => 'ugi', 'unitig_8.g3189' => 'ugi', 'vmacro02356' => 'vma', 'vmacro08756' => 'vma', 'vmacro16352' => 'vma', 'vmacro21780' => 'vma', 'VMungo0251G2922' => 'vmu', 'VMungo0720G0254' => 'vmu', 'VMungo1127G0127' => 'vmu', 'VMungo1215G0244' => 'vmu', 'VMungo1309G2428' => 'vmu', 'Zm00001eb007140' => 'zma', 'Zm00001eb027750' => 'zma', 'Zm00001eb039710' => 'zma', 'Zm00001eb072740' => 'zma', 'Zm00001eb096340' => 'zma', 'Zm00001eb108370' => 'zma', 'Zm00001eb198290' => 'zma', 'Zm00001eb253040' => 'zma', 'Zm00001eb306850' => 'zma', 'Zm00001eb307780' => 'zma', 'Zm00001eb326590' => 'zma', 'Zm00001eb349590' => 'zma' ) $gf_id = 'HOM05D001003' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001003' ) $data_identifier = 'HOM05D001003' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 23, 'aar' => (int) 4, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 7, 'cqu' => (int) 10, 'bca' => (int) 26, 'bol' => (int) 15, 'bra' => (int) 9, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 9, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 12, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 13, 'cav' => (int) 4, 'hma' => (int) 5, 'vpl' => (int) 3, 'sun' => (int) 4, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 8, 'lsa' => (int) 5, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 5, 'mdo' => (int) 5, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 7, 'nnu' => (int) 5, 'oeu' => (int) 11, 'osa' => (int) 7, 'pax' => (int) 7, 'pgr' => (int) 6, 'stu' => (int) 3, 'pvu' => (int) 5, 'ptr' => (int) 9, 'ppa' => (int) 7, 'ppe' => (int) 4, 'psa' => (int) 9, 'pso' => (int) 9, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 7, 'sbo' => (int) 4, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 6, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb349590' $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